Sequence
atgc intronic sequence ATGC exonic sequencegtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtatgattcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G29380.1 (Glycine max), 3'ss of exon 5
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtatg-attcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
| | || ||| || | | ||| || ||||| ||| |||| || |||| | | || || || || |||| || | ||| | ||| || || | |||| || ||| | |||| || | || |||||| | || || | | ||| |||| |||||| || || |||||||| |||||||||||||| || |||||||| |||||||| |
--------------------gtaagttagacatgattttcttttagtatatagagctt-------taatttgg----ttttgtttgatgctcatcatgcttta--attgtatgtcacaatcttattttatttactcaatttacatcc-cttgttat--tctgttaaactagGTCACTTGGTCAGGCAGCTCCGTGCGTAAATGCATTTGCAGCAGGCCAAGCAGCAGCATATAAGATGTTTGAGACAATTAAACGAAAGCCAAAAATTGAT
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G46540.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtatgattcacttctcaccttcttgaaatggtctcctggtt-tagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
|||||| ||| | | | | | || || | ||| |||| | || | || | | ||| | | | |||||| ||||| ||| ||| || | ||| | |||||| || || |||||||| ||||| ||||||||||| |||||| |||||||||| ||| |
-----------------------------------------------------------------------------------gtgagtaaaacgattacttgtccttgaagaaat---cttgtgatactgat--agccctaattttttacacatgcaattcacttcgtagGGCGTTGGGGCAGACATTGCCTTCTCTTAACTCTTTTGCGGCCGGAACAGCTGCAGCTTACAAAATGTTTGAGACTATCAAAAGAAAACCAAAGATCGAT
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ32016 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtat--gattcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
||| ||| | || | | ||| ||| | || |||| ||| | | | ||| | | | ||| | || | || || | || |||||| |||||||||| || |||| |||| |||| |||| |||||| || || || || |||||||||||||| || | || || |||| |
----------------------------------------------------------------gtaagctggatatctcgcagtctatat---caaccttaat--tcaacagtaagaaaagctggtctttaaaatttcttacaatagcgctgtattgaacttgtagtgcagGGCACTGGGCCAGGCTTCACCATCTCTGCGTGCCTTTGCAGCAGGCCAAGCAGCTGCGTACAAGATGTTTGAAGTTATACATCGTGTGCCTGCAATCGAT
upper sequence: Vv10s0003g02570.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ37835 (Selaginella moellendorffii), 3'ss of exon 5
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtat--gattcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
||| ||| | || | | ||| ||| | || |||| ||| | | | ||| | | | ||| | || | || || | || |||||| |||||||||| || |||| |||| |||| |||| |||||| || || || || |||||||||||||| || | || || |||| |
----------------------------------------------------------------gtaagatggatatctcgcagtctatat---caaccttaat--tcaacagtaagaaaagctggtctttaaaatttcttacaatagcgctgtattgaacttgtagtgcagGGCACTGGGCCAGGCTTCACCATCTCTGCGTGCCTTTGCAGCAGGCCAAGCAGCTGCGTACAAGATGTTTGAAGTTATACATCGCGTGCCTGCAATCGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggatatctgagtatgattcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
ttctcac putative branch site (score: 2)
tctcct putative PPT
tatgatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttatatagcattgtgatgatttccccataatcatttgttaccatgagtagcttatatcactaacttgggtcattcaaattgagtataaccaagccatatgatcaaatgtatggatatctgagtatgattcacttctcaccttcttgaaatggtctcctggtttagGGCATTGGGCCAGGCATCCCCATGTCTGAGTGCTTTTGGAGCAGGGCAGGCTGCAGCATACAAGATGTTTGAGACGATCAAACGAAAACCAAAAATCAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG